Comprehensive analysis of the chromatin landscape in Drosophila melanogaster.

Journal Article (Journal Article)

Chromatin is composed of DNA and a variety of modified histones and non-histone proteins, which have an impact on cell differentiation, gene regulation and other key cellular processes. Here we present a genome-wide chromatin landscape for Drosophila melanogaster based on eighteen histone modifications, summarized by nine prevalent combinatorial patterns. Integrative analysis with other data (non-histone chromatin proteins, DNase I hypersensitivity, GRO-Seq reads produced by engaged polymerase, short/long RNA products) reveals discrete characteristics of chromosomes, genes, regulatory elements and other functional domains. We find that active genes display distinct chromatin signatures that are correlated with disparate gene lengths, exon patterns, regulatory functions and genomic contexts. We also demonstrate a diversity of signatures among Polycomb targets that include a subset with paused polymerase. This systematic profiling and integrative analysis of chromatin signatures provides insights into how genomic elements are regulated, and will serve as a resource for future experimental investigations of genome structure and function.

Full Text

Duke Authors

Cited Authors

  • Kharchenko, PV; Alekseyenko, AA; Schwartz, YB; Minoda, A; Riddle, NC; Ernst, J; Sabo, PJ; Larschan, E; Gorchakov, AA; Gu, T; Linder-Basso, D; Plachetka, A; Shanower, G; Tolstorukov, MY; Luquette, LJ; Xi, R; Jung, YL; Park, RW; Bishop, EP; Canfield, TK; Sandstrom, R; Thurman, RE; MacAlpine, DM; Stamatoyannopoulos, JA; Kellis, M; Elgin, SCR; Kuroda, MI; Pirrotta, V; Karpen, GH; Park, PJ

Published Date

  • March 24, 2011

Published In

Volume / Issue

  • 471 / 7339

Start / End Page

  • 480 - 485

PubMed ID

  • 21179089

Pubmed Central ID

  • PMC3109908

Electronic International Standard Serial Number (EISSN)

  • 1476-4687

Digital Object Identifier (DOI)

  • 10.1038/nature09725


  • eng

Conference Location

  • England